This was particularly the case with the 3/8 cent proprietary stamp. Compare the two side-by-side stamps below. At first and second glance they look the same. The inevitable confusion wasn't just accepted. The Bureau went so far as to pick another color for the half cent stamp, and so they went with gray.
And so we end up with the stamp below, one that is dignified but one that left cancels obscured.
There are 12 rouletted stamps versus 10 hyphen-hole stamps because of the half cent varieties. Enough half cent stamps were printed before the switch to hyphen-holes so that no more half cent stamps were ordered after the switch to hyphen holes. There are two colors of half cent stamps, one orange and one gray. Orange was the original color of the half cent stamp but it was changed to gray because the orange stamp was the same color as the 3/8 cent proprietary stamp and caused too much confusion. 
The Santa Fe, or the Atchison, Topeka and Santa Fe Railroad, was chartered in 1859 and lasted as an independent railroad until its merger with the Burlington Northern in 1996.
"The A.T. & S.F. Ry. Co." is spelled out in the cancellation of thi stamp.
The Frisco operated from 1876 to 1980 in the midwest and south central United States. Despite its name, The St. Louis and San Francisco Railroad, the road never actually reached or got close to San Francisco.
Compare the route map for the Frisco below with current lines on the BNSF map. The old Frisco routes are a key part of the BNSF's system in the middle of the United States._svg.png)
The BNSF was created through the merger of two of the greatest American railroads, the Burlington Northern and the Atchison, Topeka and Santa Fe RR, usually known as the Santa Fe.
BNSF route map. Mainlines of the 4 railroads comprising the 1970 merger can be seen on this map.
This is the current BNSF route map. Many of the redlines on this map represent components of the mainlines of the following railroads, some of which will be represented by cancels on 1898 series documentary stamps.
This stamp displays a cancel for the Chicago, Burlington and Northern Railroad which was merged into the Chicago, Burlington and Quincy in 1899. 
Compare elements of the routes on this route map of the CBQRR with the current BNSF route map. The map dates from 1892, after the absorption of the Burlington and Missouri River RR by the CBQRR. 
Above is a printed cancellation for the Burlington and Missouri River RR in Nebraska; below is a handstamp. In the 1870s the BMRRR was absorbed and taken over by the CBQRR though it continued to have a separate identity. 
Below is a common printed cancellation for the CBQRR. 
Cancel for the Detroit and Lima Northern Railway. The D&LN connected Detroit with Lima, Ohio.
Cancel for the Ann Arbor Railroad. The AARR maintained a line from Ann Arbor to Lake Michigan shoreline and ran ferry services across Lake Michigan. The Wabash Railroad controlled the Ann Arbor (through stock ownership) from 1925 to 1963. An earlier post contains a Wabash RR cancel.
It would seem likely that the band Grand Funk Railroad took its name from this railway. They did a great cover of the song "Locomotion," a perfect song for a band named after a railroad. 
I don't have any information about these companies. Their straight line cancels and their Atlanta origin make me think they are related to other Atlanta railroad car lines from a previous post, like the Southern Iron Car Line. I post these here because the Continental Fruit Express cancel was from a refrigerator car line controlled by the meat packing company Armour. 
A few posts back there are images from a set of connected companies that include the Southern Iron Car Line. These stamps were canceled by firms that were not railroads per se but were companies that controled railroad cars available for hire.
The logo above is for the C&A Railway. The C&A Railroad was reorganized into the Railway in 1900, not long after the use of this stamp.
Perhaps the most significant feature of the 1898 revenue series beyond the basic battleship design is the method the Bureau of Engraving and Printing applied so that users could separate the stamps. Standard round perforations (now mostly history due to die cutting used on self-stick stamps) were not used on the 1898 revenues. Instead, the Bureau used both "rouletting" and rectangular perforations.
Roulette: The block above has been rouletted. As you can see by looking between the stamps, there appear to be a series of cuts. These were made by a wheel with the equivalent of short knife blades on it that cut in between the stamps. The process removes no paper and does not make a hole. By this standard a roulette is not a perforation.
Hyphen Hole: The block below has hyphen hole perforations. This process is a perforation process and does remove paper from the stamp sheet. Unlike normal round perforations these are oblong slots that look something like hyphens, hence the name hyphen hole.
When the stamps first appeared in 1898 they were exclusively scored using rouletting. By early 1900 only hyphen-holes were used by the Bureau. I chose blocks to illustrate the difference between roulette and hyphen-hole. Single stamps make it sometimes difficult at first glance to detect the difference between hyphen hole and roulette. Formally, hyphen-hole stamps on this issue are labeled as HH 7 since there are 7 holes per inch. Rouletting in R 5.5, since there are 5 and half roulette cuts per inch.
This is the July 1898 page from Henry Tolman's 2 Cent Battleship Calender. It is typical of the forward months of the calender through the tax period requiring these stamps. Most of the dates are occupied by cancels from railroads. Some dates the origin can't be determined and the remainder dates are completed by banks, industrial concerns, and other companies.
